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This Week in Cell: Oct 23, 2014

A University of California at San Francisco-led team presented CRISPR-based strategies to systematically repress and activate the transcription of endogenous human genes. As they report online in Cell, the researchers started by screening the activity of short guide RNAs (sgRNAs) tiling to sequences in and around transcription start sites for dozens of genes mediating ricin susceptibility in cells. From there, they detected patterns associated with activation or repression, ultimately developing genome-scale libraries of CRISPR repressors, called CRISPRi, and CRISPR activators (CRISPRa) that they used for subsequent screens for genes related to cell growth features.

Researchers from the Massachusetts Institute of Technology and the Broad Institute's Stanley Center for Psychiatric Research describe the development of modified mice that can be used to perform CRISPR-Cas9 experiments both in vivo and ex vivo using either viral or non-viral sgRNA delivery methods. In proof-of-principle experiments, for instance, the team demonstrated that they could use this system to study cancer in the mice, creating conditions that diminished the function of tumor suppressor genes or enhanced the activity of apparent oncogenes.

Using germ-free mice, 16S ribosomal RNA sequencing, and shotgun pyrosequencing, a team from the US and France tracked the microbial community members that take up residence in the mouse gut over time following exposure to different bacterial sources — from soil to gut bugs from other organisms such as humans, zebrafish, or termites. For instance, their findings delineated the types of microbial community succession that takes place during different types of exposures, including ongoing dominance by microbial species introduced from soil sources. In addition, the study's authors argued the strategy they used "generalizes to address a variety of mechanistic questions about succession, including succession in the context of microbiota-directed therapeutics."

The Scan

ChatGPT Does As Well As Humans Answering Genetics Questions, Study Finds

Researchers in the European Journal of Human Genetics had ChatGPT answer genetics-related questions, finding it was about 68 percent accurate, but sometimes gave different answers to the same question.

Sequencing Analysis Examines Gene Regulatory Networks of Honeybee Soldier, Forager Brains

Researchers in Nature Ecology & Evolution find gene regulatory network differences between soldiers and foragers, suggesting bees can take on either role.

Analysis of Ashkenazi Jewish Cohort Uncovers New Genetic Loci Linked to Alzheimer's Disease

The study in Alzheimer's & Dementia highlighted known genes, but also novel ones with biological ties to Alzheimer's disease.

Tara Pacific Expedition Project Team Finds High Diversity Within Coral Reef Microbiome

In papers appearing in Nature Communications and elsewhere, the team reports on findings from the two-year excursion examining coral reefs.